Big data integration: Pan-European fungal species observations' assembly for addressing contemporary questions in ecology and global change biology

Andrew, Carrie; Heegaard, Einar; Kirk, Paul M.; Bässler, Claus; Heilmann‐Clausen, Jacob; Krisai‐Greilhuber, Irmgard; Kuyper, Thom W.; Senn-Irlet, Béatrice; Büntgen, Ulf; Diez, Jeffrey M.; Egli, Simon; Gange, Alan C.; Halvorsen, Rune; Høiland, Klaus; Nordén, Jenni; Rustøen, Fredrik; Boddy, Lynne; Kauserud, Håvard

doi:10.1016/j.fbr.2017.01.001

Cited by 48 publications

(65 citation statements)

References 26 publications

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“…In Europe, extensive fungal fruit body records have been catalogued at the largest spatiotemporal scales currently available (Andrew et al., ). While the records with comprehensive sampling distributions that span multiple decades make it possible to investigate temporal changes of fungi related to climate, such data sets have so far mainly been used for studying phenology (e.g.…”

Section: Introductionmentioning

confidence: 99%

“…Boddy et al., ; Büntgen, Kauserud, & Egli, ; Kauserud et al., , , ). The uniform coverage of fungal species data throughout a large part of their geographical extent (Andrew et al., ), when aggregated at appropriate spatial resolutions and across decades of time, sets this data source apart from molecular‐based data. These data capture the entirety of fungal environmental and geographical gradients more completely than current molecular data, and in this respect, are ideal sources to better understand environmental correlates to fungal biogeography.…”

Section: Introductionmentioning

confidence: 99%

“…Heilmann‐Clausen et al., ). While sporadic and ephemeral fruiting patterns of fungi can limit the accuracy of their representation, the problem is minimized by compiling data across multiple years and at broader spatial resolutions than original point observations (Andrew et al., ). Finally, the presence‐only data for fruit bodies are the sole source of large‐scale historical‐to‐contemporary records in mycology.…”

Section: Introductionmentioning

confidence: 99%

“…In this study, we use 4.9 million fruit body occurrences, extracted from a large‐scale, European meta‐database with more than 6 million fungal fruit body records (Andrew et al., ), to identify the major fungal biogeographic compositional patterns in Europe. For fungi in two main nutritional modes, saprotrophic and ectomycorrhizal, we first identified the gradients structuring assemblages and their environmental correlates.…”

Section: Introductionmentioning

confidence: 99%

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Continental‐scale macrofungal assemblage patterns correlate with climate, soil carbon and nitrogen deposition

Andrew

Halvorsen

Heegaard

et al. 2018

Journal of Biogeography

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Aim Macroecological scales of species compositional trends are well documented for a variety of plant and animal groups, but remain sparse for fungi, despite their ecological importance in carbon and nutrient cycling. It is, thus, essential to understand the composition of fungal assemblages across broad geographical scales and the underlying drivers. Our overall aim was to describe these patterns for fungi across two nutritional modes (saprotrophic and ectomycorrhizal). Furthermore, we aimed to elucidate the temporal component of fruiting patterns and to relate these to soil carbon and nitrogen deposition. Location Central and Northern Europe. Methods A total of 4.9 million fungal fruit body observations throughout Europe, collected between 1970 and 2010, were analysed to determine the two main environmental and geographical gradients structuring fungal assemblages for two main nutritional modes, saprotrophic and ectomycorrhizal fungi. Results Two main gradients explaining the geography of compositional patterns were identified, for each nutritional mode. Mean annual temperature (and related collinear, seasonal measures) correlated most strongly with the first gradient for both nutritional modes. Soil organic carbon was the highest correlate of the second compositional gradient for ectomycorrhizal fungi, suspected as an indicator of vegetation‐ and pH‐related covariates. In contrast, nitrogen deposition constituted a second gradient for saprotrophic fungi, likely a proxy for anthropogenic pollution. Compositional gradients and environmental conditions correlated similarly when the data were divided into two time intervals of 1970–1990 and 1991–2010. Evidence of compositional temporal change was highest with increasing elevation and latitude. Main conclusions Fungal assemblage patterns demonstrate clear biogeographical patterns that relate the nutritional modes to their main environmental correlates of temperature, soil organic carbon and nitrogen deposition. With respect to global change impacts, the highest rates of compositional change by time suggest targeting higher latitudes and elevations for a better understanding of fungal dynamics. We, finally, suggest further examination of the ranges and dispersal abilities of fungi to better assess responses to global change.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Continental‐scale macrofungal assemblage patterns correlate with climate, soil carbon and nitrogen deposition

Andrew

Halvorsen

Heegaard

et al. 2018

Journal of Biogeography

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“…For example, a biogeographic assessment of saprotrophic and ectomycorrhizal fungi (Andrew et al, 2018) was based on a Big Data integration effort (Andrew et al, 2017), boosting data availability for such an under-represented group as fungi. The meeting highlighted that macroecologists have worked hard in recent years to aggregate data on undersampled taxa that have been collected by specialized taxonomists or field biologists.…”

Section: Ag G Reg Ati On Of L Arg E Data S E Tsmentioning

confidence: 99%

Macroecology in the age of Big Data – Where to go from here?

Wüest

Zimmermann

Zurell

et al. 2019

Journal of Biogeography

108

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Recent years have seen an exponential increase in the amount of data available in all sciences and application domains. Macroecology is part of this “Big Data” trend, with a strong rise in the volume of data that we are using for our research. Here, we summarize the most recent developments in macroecology in the age of Big Data that were presented at the 2018 annual meeting of the Specialist Group Macroecology of the Ecological Society of Germany, Austria and Switzerland (GfÖ). Supported by computational advances, macroecology has been a rapidly developing field over recent years. Our meeting highlighted important avenues for further progress in terms of standardized data collection, data integration, method development and process integration. In particular, we focus on (a) important data gaps and new initiatives to close them, for example through space‐ and airborne sensors, (b) how various data sources and types can be integrated, (c) how uncertainty can be assessed in data‐driven analyses and (d) how Big Data and machine learning approaches have opened new ways of investigating processes rather than simply describing patterns. We discuss how Big Data opens up new opportunities, but also poses new challenges to macroecological research. In the future, it will be essential to carefully assess data quality, the reproducibility of data compilation and analytical methods, and the communication of uncertainties. Major progress in the field will depend on the definition of data standards and workflows for macroecology, such that scientific quality and integrity are guaranteed, and collaboration in research projects is made easier.

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Open‐source data reveal how collections‐based fungal diversity is sensitive to global change

et al. 2019

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Premise of the Study Fungal diversity (richness) trends at large scales are in urgent need of investigation, especially through novel situations that combine long‐term observational with environmental and remotely sensed open‐source data. Methods We modeled fungal richness, with collections‐based records of saprotrophic (decaying) and ectomycorrhizal (plant mutualistic) fungi, using an array of environmental variables across geographical gradients from northern to central Europe. Temporal differences in covariables granted insight into the impacts of the shorter‐ versus longer‐term environment on fungal richness. Results Fungal richness varied significantly across different land‐use types, with highest richness in forests and lowest in urban areas. Latitudinal trends supported a unimodal pattern in diversity across Europe. Temperature, both annual mean and range, was positively correlated with richness, indicating the importance of seasonality in increasing richness amounts. Precipitation seasonality notably affected saprotrophic fungal diversity (a unimodal relationship), as did daily precipitation of the collection day (negatively correlated). Ectomycorrhizal fungal richness differed from that of saprotrophs by being positively associated with tree species richness. Discussion Our results demonstrate that fungal richness is strongly correlated with land use and climate conditions, especially concerning seasonality, and that ongoing global change processes will affect fungal richness patterns at large scales.

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Big data integration: Pan-European fungal species observations' assembly for addressing contemporary questions in ecology and global change biology

Cited by 48 publications

References 26 publications

Continental‐scale macrofungal assemblage patterns correlate with climate, soil carbon and nitrogen deposition

Continental‐scale macrofungal assemblage patterns correlate with climate, soil carbon and nitrogen deposition

Macroecology in the age of Big Data – Where to go from here?

Open‐source data reveal how collections‐based fungal diversity is sensitive to global change

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